pept.base.PointDataFilter#
- class pept.base.PointDataFilter[source]#
Bases:
Filter
An abstract class that defines a filter for samples of pept.PointData.
An implementor must define the method def fit_sample(self, sample).
A default fit method is provided for convenience, calling fit_sample on each sample from an iterable according to a given execution policy (e.g. “sequential”, “joblib”, or concurrent.futures.Executor subclasses, such as ProcessPoolExecutor or MPIPoolExecutor).
- __init__(*args, **kwargs)#
Methods
__init__
(*args, **kwargs)copy
([deep])Create a deep copy of an instance of this class, including all inner attributes.
fit
(point_data[, executor, max_workers, verbose])Apply self.fit_sample (implemented by subclasses) according to the execution policy.
fit_sample
(sample)load
(filepath)Load a saved / pickled PEPTObject object from filepath.
save
(filepath)Save a PEPTObject instance as a binary pickle object.
- fit(point_data, executor='joblib', max_workers=None, verbose=True)[source]#
Apply self.fit_sample (implemented by subclasses) according to the execution policy. Simply return a list of processed samples. If you need a reduction step (e.g. stack all processed samples), apply it in the subclass.
- copy(deep=True)#
Create a deep copy of an instance of this class, including all inner attributes.
- abstract fit_sample(sample)#
- static load(filepath)#
Load a saved / pickled PEPTObject object from filepath.
Most often the full object state was saved using the .save method.
- Parameters
- filepath
filename
orfile
handle
If filepath is a path (rather than file handle), it is relative to where python is called.
- filepath
- Returns
pept.PEPTObject
subclass
instance
The loaded object.
Examples
Save a LineData instance, then load it back:
>>> lines = pept.LineData([[1, 2, 3, 4, 5, 6, 7]]) >>> lines.save("lines.pickle")
>>> lines_reloaded = pept.LineData.load("lines.pickle")
- save(filepath)#
Save a PEPTObject instance as a binary pickle object.
Saves the full object state, including inner attributes, in a portable binary format. Load back the object using the load method.
- Parameters
- filepath
filename
orfile
handle
If filepath is a path (rather than file handle), it is relative to where python is called.
- filepath
Examples
Save a LineData instance, then load it back:
>>> lines = pept.LineData([[1, 2, 3, 4, 5, 6, 7]]) >>> lines.save("lines.pickle")
>>> lines_reloaded = pept.LineData.load("lines.pickle")